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| 12.05.1999 | 19:00 | Hannover 96 | - | KFC Uerdingen 05 | 3:1 (2:1) | |
| 14.05.1999 | 19:00 | SpVgg Unterhaching | - | Stuttgarter Kickers | 2:0 (1:0) | |
| 19:00 | SSV Ulm 1846 | - | Fortuna Düsseldorf | 4:2 (1:1) | ||
| 19:00 | FC St. Pauli | - | Rot-Weiß Oberhausen | 1:1 (1:0) | ||
| 16.05.1999 | 15:00 | Karlsruher SC | - | SG Wattenscheid 09 | 2:1 (1:0) | |
| 15:00 | 1. FSV Mainz 05 | - | Fortuna Köln | 1:1 (0:0) | ||
| 15:00 | 1. FC Köln | - | TeBe Berlin | 1:0 (0:0) | ||
| 15:00 | Energie Cottbus | - | FC Gütersloh | 5:1 (1:0) | ||
| 17.05.1999 | 20:15 | Arminia Bielefeld | - | SpVgg Greuther Fürth | 2:1 (1:0) |
| # | Team | GS. | W. | G. | V. | Dp. | Ds. | P. | |
|---|---|---|---|---|---|---|---|---|---|
| 1 |
|
SpVgg Unterhaching | 30 | 18 | 4 | 8 | 39:23 | 16 | 58 |
| 2 |
|
Arminia Bielefeld | 30 | 17 | 6 | 7 | 51:28 | 23 | 57 |
| 3 |
|
Karlsruher SC | 30 | 16 | 3 | 11 | 49:38 | 11 | 51 |
| 4 |
|
SSV Ulm 1846 | 30 | 13 | 12 | 5 | 57:47 | 10 | 51 |
| 5 |
|
Hannover 96 | 30 | 14 | 7 | 9 | 47:33 | 14 | 49 |
| 6 |
|
TeBe Berlin | 30 | 14 | 7 | 9 | 43:36 | 7 | 49 |
| 7 |
|
SpVgg Greuther Fürth | 30 | 13 | 9 | 8 | 39:25 | 14 | 48 |
| 8 |
|
1. FSV Mainz 05 | 30 | 11 | 8 | 11 | 39:40 | -1 | 41 |
| 9 |
|
Stuttgarter Kickers | 30 | 11 | 7 | 12 | 31:39 | -8 | 40 |
| 10 |
|
1. FC Köln | 30 | 10 | 9 | 11 | 39:44 | -5 | 39 |
| 11 |
|
Fortuna Köln | 30 | 9 | 11 | 10 | 47:50 | -3 | 38 |
| 12 |
|
FC St. Pauli | 30 | 10 | 7 | 13 | 36:42 | -6 | 37 |
| 13 |
|
Rot-Weiß Oberhausen | 30 | 7 | 13 | 10 | 33:43 | -10 | 34 |
| 14 |
|
Energie Cottbus | 30 | 7 | 11 | 12 | 37:39 | -2 | 32 |
| 15 |
|
FC Gütersloh | 30 | 8 | 7 | 15 | 35:51 | -16 | 31 |
| 16 |
|
SG Wattenscheid 09 | 30 | 6 | 9 | 15 | 25:38 | -13 | 27 |
| 17 |
|
KFC Uerdingen 05 | 30 | 6 | 9 | 15 | 31:47 | -16 | 27 |
| 18 |
|
Fortuna Düsseldorf | 30 | 4 | 13 | 13 | 32:47 | -15 | 25 |
